11. Next-Generation Sequencing and Functional Genomic Analysis in Rainbow Trout

  1. Marco Saroglia2 and
  2. Zhanjiang (John) Liu3
  1. Mohamed Salem

Published Online: 11 JUN 2012

DOI: 10.1002/9781118350041.ch11

Functional Genomics in Aquaculture

Functional Genomics in Aquaculture

How to Cite

Salem, M. (2012) Next-Generation Sequencing and Functional Genomic Analysis in Rainbow Trout, in Functional Genomics in Aquaculture (eds M. Saroglia and Z. (. Liu), Wiley-Blackwell, Oxford, UK. doi: 10.1002/9781118350041.ch11

Editor Information

  1. 2

    Department of Biotechnology and Molecular Sciences, Animal Biotechnology and Aquaculture Unit, University of Insubria, Via J.H. Dunant 3 Varese I-21100, Italy

  2. 3

    The Fish Molecular Genetics and Biotechnology Laboratory, Department of Fisheries and Allied Aquacultures and Program of Cell and Molecular Biosciences, Aquatic Genomics Unit, Auburn University, Auburn, AL 36849, USA

Author Information

  1. Laboratory of Animal Biotechnology and Genomics, Division of Animal and Nutritional Sciences, West Virginia University, Morgantown, WV 26506-6108, USA

Publication History

  1. Published Online: 11 JUN 2012
  2. Published Print: 27 JUL 2012

ISBN Information

Print ISBN: 9780470960080

Online ISBN: 9781118350041



  • NGS and functional genomic analysis in rainbow trout;
  • SNP identification, using RAD libraries of the genome;
  • NGS, overcoming Sanger-based capillary sequencing drawback;
  • Illumina's sequencing platform, sequencing-by-synthesis;
  • Illumina and 454 Roche/Pyrosequencing, in rainbow trout genome;
  • NGS applications, in sequencing rainbow trout genome;
  • transcriptome sequencing, functional genomics for gene discovery, QTL;
  • SNP-based genotyping and genome-wide association;
  • fast/slow growth, Shotgun Sequence, RAN-Seq, in rainbow trout;
  • SNP-based whole-genome selection, genetic improvements in breeding


This chapter contains sections titled:

  • Introduction

  • Next-Generation Sequencing Technology

  • Applications of Next-generation Sequencing in Rainbow Trout

  • Conclusion and Future Perspectives

  • References